Create structure for testing

PyNutil/folder_of_segmentations_to_meshview_multithreaded.py

@@ -10,7 +10,7 @@ import json
 from datetime import datetime
 
 #import json, use to define input parameters
-with open('../input/input.json', 'r') as f:
+with open('../test/test1.json', 'r') as f:
   input = json.load(f)
 #print(input)
 

test/test1.json

+{   "volume_path": "../annotation_volumes/annotation_10_reoriented.nrrd",
+    "label_path": "../annotation_volumes/allen2022_colours.csv",
+    "allen_colours": "../annotation_volumes/allen2022_colours.csv",
+    "segmentation_folder": "../test_data/tTA_2877_NOP",
+    "alignment_json": "../test_data/tTA_2877_NOP_horizontal_final_2017.json",
+    "nonlinear": true,
+    "colour": [0, 0, 255], 
+    "points_json_path": "../outputs/test1.json",
+    "counts_per_label_name": "../outputs/test1_counts_per_allenID.csv"
+}
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test/test2.json

+{   "volume_path": "../annotation_volumes/annotation_10_reoriented.nrrd",
+    "label_path": "../annotation_volumes/allen2022_colours.csv",
+    "allen_colours": "../annotation_volumes/allen2022_colours.csv",
+    "segmentation_folder": "../test_data/oneSection15",
+    "alignment_json": "../test_data/C68_nonlinear_no_markers.json",
+    "nonlinear": true,
+    "colour": [255, 0, 255],
+    "points_json_path": "../outputs/test2_points.json",
+    "counts_per_label_name": "../outputs/test2_counts_per_allenID.csv"
+}
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test/test3.json

+{   "volume_path": "../annotation_volumes/annotation_10_reoriented.nrrd",
+    "label_path": "../annotation_volumes/allen2022_colours.csv",
+    "allen_colours": "../annotation_volumes/allen2022_colours.csv",
+    "segmentation_folder": "../test_data/oneSection15",
+    "alignment_json": "../test_data/C68_nonlinear.json",
+    "nonlinear": true,
+    "colour": [255, 0, 255],
+    "points_json_path": "../outputs/test3_points.json",
+    "counts_per_label_name": "../outputs/test3_counts_per_allenID.csv"
+}
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